keyword
https://read.qxmd.com/read/38331810/rayleigh-step-selection-functions-and-connections-to-continuous-time-mechanistic-movement-models
#21
JOURNAL ARTICLE
Joseph M Eisaguirre, Perry J Williams, Mevin B Hooten
BACKGROUND: The process known as ecological diffusion emerges from a first principles view of animal movement, but ecological diffusion and other partial differential equation models can be difficult to fit to data. Step-selection functions (SSFs), on the other hand, have emerged as powerful practical tools for ecologists studying the movement and habitat selection of animals. METHODS: SSFs typically involve comparing resources between a set of used and available points at each step in a sequence of observed positions...
February 8, 2024: Movement Ecology
https://read.qxmd.com/read/38258927/active-search-for-a-reactive-target-in-thermal-environments
#22
JOURNAL ARTICLE
Byeong Guk Go, Euijin Jeon, Yong Woon Kim
We study a stochastic process where an active particle, modeled by a one-dimensional run-and-tumble particle, searches for a target with a finite absorption strength in thermal environments. Solving the Fokker-Planck equation for a uniform initial distribution, we analytically calculate the mean searching time (MST), the time for the active particle to be finally absorbed, and show that there exists an optimal self-propulsion velocity of the active particle at which MST is minimized. As the diffusion constant increases, the optimal velocity changes from a finite value to zero, which implies that a purely diffusive Brownian motion outperforms an active motion in terms of searching time...
January 28, 2024: Journal of Chemical Physics
https://read.qxmd.com/read/38243113/field-free-switching-of-perpendicular-magnetization-by-two-dimensional-ptte-2-wte-2-van-der-waals-heterostructures-with-high-spin-hall-conductivity
#23
JOURNAL ARTICLE
Fei Wang, Guoyi Shi, Kyoung-Whan Kim, Hyeon-Jong Park, Jae Gwang Jang, Hui Ru Tan, Ming Lin, Yakun Liu, Taeheon Kim, Dongsheng Yang, Shishun Zhao, Kyusup Lee, Shuhan Yang, Anjan Soumyanarayanan, Kyung-Jin Lee, Hyunsoo Yang
The key challenge of spin-orbit torque applications lies in exploring an excellent spin source capable of generating out-of-plane spins while exhibiting high spin Hall conductivity. Here we combine PtTe2 for high spin conductivity and WTe2 for low crystal symmetry to satisfy the above requirements. The PtTe2 /WTe2 bilayers exhibit a high in-plane spin Hall conductivity σs,y  ≈ 2.32 × 105  × ħ/2e Ω-1  m-1 and out-of-plane spin Hall conductivity σs,z  ≈ 0...
January 19, 2024: Nature Materials
https://read.qxmd.com/read/38190505/radiomics-on-spatial-temporal-manifolds-via-fokker-planck-dynamics
#24
JOURNAL ARTICLE
Jack B Stevens, Breylon A Riley, Jihyeon Je, Yuan Gao, Chunhao Wang, Yvonne M Mowery, David M Brizel, Fang-Fang Yin, Jian-Guo Liu, Kyle J Lafata
BACKGROUND: Delta radiomics is a high-throughput computational technique used to describe quantitative changes in serial, time-series imaging by considering the relative change in radiomic features of images extracted at two distinct time points. Recent work has demonstrated a lack of prognostic signal of radiomic features extracted using this technique. We hypothesize that this lack of signal is due to the fundamental assumptions made when extracting features via delta radiomics, and that other methods should be investigated...
January 8, 2024: Medical Physics
https://read.qxmd.com/read/38165090/trajectory-statistical-learning-of-the-potential-mean-of-force-and-diffusion-coefficient-from-molecular-dynamics-simulations
#25
JOURNAL ARTICLE
Yi-Tsao Chen, Haw Yang, Jhih-Wei Chu
Central to studying the conformational changes of a complex protein is understanding the dynamics and energetics involved. Phenomenologically, structural dynamics can be formulated using an overdamped Langevin model along an observable, e.g., the distance between two residues in the protein. The Langevin model is specified by the deterministic force (the potential of mean force, PMF) and stochastic force (characterized by the diffusion coefficient, D ). It is therefore of great interest to be able to extract both PMF and D from an observable time series but under the same computational framework...
January 2, 2024: Journal of Physical Chemistry. B
https://read.qxmd.com/read/38124613/effect-of-color-cross-correlated-noise-on-the-growth-characteristics-of-tumor-cells-under-immune-surveillance
#26
JOURNAL ARTICLE
Yan Fu, Tian Lu, Meng Zhou, Dongwei Liu, Qihang Gan, Guowei Wang
Based on the Michaelis-Menten reaction model with catalytic effects, a more comprehensive one-dimensional stochastic Langevin equation with immune surveillance for a tumor cell growth system is obtained by considering the fluctuations in growth rate and mortality rate. To explore the impact of environmental fluctuations on the growth of tumor cells, the analytical solution of the steady-state probability distribution function of the system is derived using the Liouville equation and Novikov theory, and the influence of noise intensity and correlation intensity on the steady-state probability distributional function are discussed...
December 6, 2023: Mathematical Biosciences and Engineering: MBE
https://read.qxmd.com/read/38115486/survival-probabilities-and-first-passage-distributions-of-self-propelled-particles-in-spherical-cavities
#27
JOURNAL ARTICLE
Binny J Cherayil
A model of self-propelled motion in a closed compartment containing simple or complex fluids is formulated in this paper in terms of the dynamics of a point particle moving in a spherical cavity under the action of random thermal forces and exponentially correlated noise. The particle's time evolution is governed by a generalized Langevin equation (GLE) in which the memory function, connected to the thermal forces by a fluctuation-dissipation relation, is described by Jeffrey's model of viscoelasticity (which reduces to a model of ordinary viscous dynamics in a suitable limit)...
November 2023: Physical Review. E
https://read.qxmd.com/read/38115401/single-file-diffusion-in-spatially-inhomogeneous-systems
#28
JOURNAL ARTICLE
Benjamin Sorkin, David S Dean
We study the effect of spatially varying potential and diffusivity on the dispersion of a tracer particle in single-file diffusion. Noninteracting particles in such a system exhibit normal diffusion at late times, which is characterized by an effective diffusion constant D_{eff}. Here we demonstrate the physically appealing result that the dispersion of single-file tracers in this system has the same long-time behavior as that for Brownian particles in a spatially homogeneous system with constant diffusivity D_{eff}...
November 2023: Physical Review. E
https://read.qxmd.com/read/38073197/analytical-improvements-and-assessment-of-long-term-performance-of-the-oxidation-denitrifier-method
#29
JOURNAL ARTICLE
Simone Moretti, Nicolas N Duprey, Alan D Foreman, Anthea Arns, Sven Brömme, Jonathan Jung, Xuyuan E Ai, Alexandra Auderset, Aaron L Bieler, Camino Eck, Jesse Farmer, Barbara Hinnenberg, Matthew Lacerra, Jennifer Leichliter, Tina Lüdecke, Sergey Oleynik, Florian Rubach, Mareike Schmitt, Marissa Vink, Tanja Wald, Maayan Yehudai, Daniel M Sigman, Alfredo Martínez-García
UNLABELLED: The analysis of the nitrogen (N) isotopic composition of organic matter bound to fossil biomineral structures (BB-δ15 N) using the oxidation-denitrifier (O-D) method provides a novel tool to study past changes in N cycling processes. METHODS: We report a set of methodological improvements to the O-D method, including (a) a method for sealing the reaction vials in which the oxidation of organic N to NO3 - takes place, (b) a recipe for bypassing the pH adjustment step before the bacterial conversion of NO3 - to N2 O, and (c) a method for storing recrystallized dipotassium peroxodisulfate (K2 S2 O8 ) under Ar atmosphere...
January 15, 2024: Rapid Communications in Mass Spectrometry: RCM
https://read.qxmd.com/read/38067887/inassb-photodiode-fibre-optic-thermometry-for-high-speed-near-ambient-temperature-measurements
#30
JOURNAL ARTICLE
Emilios Leonidas, Matthew J Hobbs, Sabino Ayvar-Soberanis, Hatim Laalej, Callum Fisk, Stephen Fitzpatrick, Jon R Willmott
Infrared radiation thermometers (IRTs) overcome many of the limitations of thermocouples, particularly responsiveness and calibration drift. The main challenge with radiation thermometry is the fast and reliable measurement of temperatures close to room temperature. A new IRT which is sensitive to wavelengths between 3 μm and 11 μm was developed and tested in a laboratory setting. It is based on an uncooled indium arsenide antimony (InAsSb) photodiode, a transimpedance amplifier, and a silver halogenide fibre optic cable transmissive in the mid- to long-wave infrared region...
November 30, 2023: Sensors
https://read.qxmd.com/read/38052080/the-limiting-dynamics-of-sgd-modified-loss-phase-space-oscillations-and-anomalous-diffusion
#31
JOURNAL ARTICLE
Daniel Kunin, Javier Sagastuy-Brena, Lauren Gillespie, Eshed Margalit, Hidenori Tanaka, Surya Ganguli, Daniel L K Yamins
In this work, we explore the limiting dynamics of deep neural networks trained with stochastic gradient descent (SGD). As observed previously, long after performance has converged, networks continue to move through parameter space by a process of anomalous diffusion in which distance traveled grows as a power law in the number of gradient updates with a nontrivial exponent. We reveal an intricate interaction among the hyperparameters of optimization, the structure in the gradient noise, and the Hessian matrix at the end of training that explains this anomalous diffusion...
November 22, 2023: Neural Computation
https://read.qxmd.com/read/38039476/canonical-hubble-tension-resolving-early-dark-energy-cosmologies-are-inconsistent-with-the-lyman-%C3%AE-forest
#32
JOURNAL ARTICLE
Samuel Goldstein, J Colin Hill, Vid Iršič, Blake D Sherwin
Current cosmological data exhibit discordance between indirect and some direct inferences of the present-day expansion rate H_{0}. Early dark energy (EDE), which briefly increases the cosmic expansion rate prior to recombination, is a leading scenario for resolving this "Hubble tension" while preserving a good fit to cosmic microwave background (CMB) data. However, this comes at the cost of changes in parameters that affect structure formation in the late-time universe, including the spectral index of scalar perturbations n_{s}...
November 17, 2023: Physical Review Letters
https://read.qxmd.com/read/37955473/critical-growth-of-cerebral-tissue-in-organoids-theory-and-experiments
#33
JOURNAL ARTICLE
Egor I Kiselev, Florian Pflug, Arndt von Haeseler
We develop a Fokker-Planck theory of tissue growth with three types of cells (symmetrically dividing, asymmetrically dividing, and nondividing) as main agents to study the growth dynamics of human cerebral organoids. Fitting the theory to lineage tracing data obtained in next generation sequencing experiments, we show that the growth of cerebral organoids is a critical process. We derive analytical expressions describing the time evolution of clonal lineage sizes and show how power-law distributions arise in the limit of long times due to the vanishing of a characteristic growth scale...
October 27, 2023: Physical Review Letters
https://read.qxmd.com/read/37924707/mitochondrial-injury-during-normothermic-regional-perfusion-nrp-and-hypothermic-oxygenated-perfusion-hope-in-a-rodent-model-of-dcd-liver-transplantation
#34
JOURNAL ARTICLE
Rebecca Panconesi, Mauricio Flores Carvalho, Janina Eden, Marilena Fazi, Fariha Ansari, Leandro Mancina, Nadia Navari, Richard Xavier Sousa Da Silva, Daniele Dondossola, Lucia Bautista Borrego, Matthias Pietzke, Adriano Peris, David Meierhofer, Paolo Muiesan, Alexander Galkin, Fabio Marra, Philipp Dutkowski, Andrea Schlegel
BACKGROUND: Normothermic regional perfusion (NRP) and hypothermic-oxygenated-perfusion (HOPE), were both shown to improve outcomes after liver transplantation from donors after circulatory death (DCD). Comparative clinical and mechanistical studies are however lacking. METHODS: A rodent model of NRP and HOPE, both in the donor, was developed. Following asystolic donor warm ischemia time (DWIT), the abdominal compartment was perfused either with a donor-blood-based-perfusate at 37 °C (NRP) or with oxygenated Belzer-MPS at 10 °C (donor-HOPE) for 2 h...
November 2, 2023: EBioMedicine
https://read.qxmd.com/read/37910751/first-passage-time-of-laser-driven-tunneling
#35
JOURNAL ARTICLE
Aleksei M Zheltikov
The notion of the first passage time is shown to offer a meaningful extension to quantum tunneling, providing a closed-integral-form analytical unification of the tunneling rate and the tunneling passage time. We demonstrate that, in suitable potential settings, the quantum first passage time, found as a solution to the Fokker-Planck and backward Kolmogorov's equations for the quantum probability density, recovers the hallmark results for the Kramers escape rate, the lifetime of tunneling quasi-stationary wave packets, leads to a classical, distance-over-speed passage time for a free-particle wave function, and offers useful insights into Keldysh's intimation on the electron barrier-traversal time in field-induced ionization...
November 1, 2023: Optics Letters
https://read.qxmd.com/read/37895566/jeffreys-divergence-and-generalized-fisher-information-measures-on-fokker-planck-space-time-random-field
#36
JOURNAL ARTICLE
Jiaxing Zhang
In this paper, we present the derivation of Jeffreys divergence, generalized Fisher divergence, and the corresponding De Bruijn identities for space-time random field. First, we establish the connection between Jeffreys divergence and generalized Fisher information of a single space-time random field with respect to time and space variables. Furthermore, we obtain the Jeffreys divergence between two space-time random fields obtained by different parameters under the same Fokker-Planck equations. Then, the identities between the partial derivatives of the Jeffreys divergence with respect to space-time variables and the generalized Fisher divergence are found, also known as the De Bruijn identities...
October 13, 2023: Entropy
https://read.qxmd.com/read/37866471/how-an-emergent-cosmology-of-a-nonlocally-unified-meaningfully-in-formed-and-holographically-manifested-universe-can-underpin-and-frame-the-biological-embodiment-of-quantum-entanglement
#37
JOURNAL ARTICLE
Jude Currivan
With a Nobel Prize for Physics widely viewed as only given for 'settled' science, the award then essentially accepts the validity of universal nonlocality. Other key discoveries and insights in recent years are also progressively pointing to the appearance of our Universe, its energy-matter and space-time, as not being foundational but emerging from deeper, discarnate realms of causation. as digitized and meaningful, in-formation, its manifestation pixelated at the so-named Planck scale of existence. Extending from studies of black holes to the entire Universe, a growing number of cosmologists have also developed the so-named holographic principle, to model the four-dimensional appearance of our Universe (three dimensions of space and one of time) as a holographic projection of its two- dimensional boundary...
October 20, 2023: Progress in Biophysics and Molecular Biology
https://read.qxmd.com/read/37859179/approach-to-multispectral-thermometry-with-planck-formula-and-hybrid-metaheuristic-optimization-algorithm
#38
JOURNAL ARTICLE
Baolin Zhao, Kaihua Zhang, Longfei Li, Yinxin He, Kun Yu, Yufang Liu
Accurate temperature measurement has significant implications for product quality, industrial process control, and scientific research. As a non-contact temperature measurement method with broad application prospects, multispectral thermometry still poses significant challenges in data processing. Currently, most multispectral thermometry methods use the Wien approximation equation to construct the objective function. However, the use of the Wien approximation equation is conditional and generally applicable only to low temperatures or short wavelengths...
October 9, 2023: Optics Express
https://read.qxmd.com/read/37859065/data-processing-for-simultaneous-inversion-of-emissivity-and-temperature-using-improved-cabcsma-and-target-to-best-de-algorithms-in-multispectral-radiation-thermometry-mrt
#39
JOURNAL ARTICLE
Kaihua Zhang, Jingzheng Dong, Yanfen Xu, Kun Yu, Yufang Liu
In this paper, what we believe to be, a new combined algorithm of artificial bee colony and slime mould algorithm (CABCSMA) and a differential evolution (DE) algorithm using target-to-best variation strategy are proposed to process the data based on Planck's radiation law and the mathematical model of reference temperature. The material model with 6 different emissivity trends is simulated. Simulation results show that the average relative error of CABCSMA algorithm is less than 0.68%, and the average calculation time is 0...
September 25, 2023: Optics Express
https://read.qxmd.com/read/37849163/nonintegral-form-of-the-reciprocal-relation-associated-with-violation-of-the-fluctuation-response-relation
#40
JOURNAL ARTICLE
Kotaro Kasuga, Akira Yoshimori
We extend Onsager's reciprocal relation to systems in a nonequilibrium steady state. While Onsager's reciprocal relation concerns the kinetic (Onsager) coefficient, the extended reciprocal relation concerns violation of the fluctuation response relation (FRR) for mechanical and thermal perturbations. This extended relation holds at each frequency when the extent of the FRR violation is expressed in a frequency domain. This nonintegral form distinguishes the extended relation from previous relations expressed by integration over a frequency...
September 2023: Physical Review. E
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